fixed bug with get.oturep and fixed problem with errorcheckor that did not allow...

[mothur.git] / errorchecking.cpp

diff --git a/errorchecking.cpp b/errorchecking.cpp
index 4eef3b041aaf724e87efb980c6115c9cc78036ce..aa223a20379d1fd590908fbb5aa92c7a38cbf03b 100644 (file)
--- a/errorchecking.cpp
+++ b/errorchecking.cpp
@@ -23,21 +23,21 @@ ErrorCheck::ErrorCheck() {
 /******************************************************/
 
 void ErrorCheck::refresh() {
-       columnfile = globaldata->getColumnFile();
-       phylipfile = globaldata->getPhylipFile();
-       listfile = globaldata->getListFile();
-       rabundfile = globaldata->getRabundFile();
-       sabundfile = globaldata->getSabundFile();
-       namefile = globaldata->getNameFile();
-       groupfile = globaldata->getGroupFile();
-       orderfile = globaldata->getOrderFile();
-       fastafile = globaldata->getFastaFile();
-       treefile = globaldata->getTreeFile();
-       cutoff = globaldata->getCutOff();
-       format = globaldata->getFormat();
-       method = globaldata->getMethod();
-       randomtree = globaldata->getRandomTree();
-       sharedfile = globaldata->getSharedFile();
+       //columnfile = globaldata->getColumnFile();
+       //phylipfile = globaldata->getPhylipFile();
+       //listfile = globaldata->getListFile();
+       //rabundfile = globaldata->getRabundFile();
+       //sabundfile = globaldata->getSabundFile();
+       //namefile = globaldata->getNameFile();
+       //groupfile = globaldata->getGroupFile();
+       //orderfile = globaldata->getOrderFile();
+       //fastafile = globaldata->getFastaFile();
+       //treefile = globaldata->getTreeFile();
+       //cutoff = globaldata->getCutOff();
+       //format = globaldata->getFormat();
+       //method = globaldata->getMethod();
+       //randomtree = globaldata->getRandomTree();
+       //sharedfile = globaldata->getSharedFile();
 }
 
 /*******************************************************/
@@ -85,8 +85,6 @@ bool ErrorCheck::checkInput(string input) {
                                
                                //is it a valid parameter
                                if (validParameter->isValidParameter(parameter, commandName, value) != true) { return false; }
-
-
                                
                                if (parameter == "phylip" )             { phylipfile = value; }
                                if (parameter == "column" )             { columnfile = value; }